phytoclass: Estimate Chla Biomass of Phytoplankton Groups
Determine the chlorophyll a (Chl a) biomass of different
phytoplankton groups based on their pigment biomarkers. The method uses
non-negative matrix factorisation and simulated annealing to minimise error
between the observed and estimated values of pigment concentrations
(Hayward et al. (2023) <doi:10.1002/lom3.10541>).
The approach is similar to the widely used 'CHEMTAX' program
(Mackey et al. 1996) <doi:10.3354/meps144265>, but is more straightforward,
accurate, and not reliant on initial guesses for the pigment to Chl a
ratios for each phytoplankton group.
Version: |
1.0.0 |
Depends: |
R (≥ 4.2) |
Imports: |
bestNormalize, dplyr, dynamicTreeCut, ggplot2, Metrics, RcppML, stats, tidyr |
Suggests: |
knitr, rmarkdown |
Published: |
2023-09-29 |
Author: |
Alexander Hayward [aut, cre, cph],
Andy McKenzie [aut] |
Maintainer: |
Alexander Hayward <phytoclass at outlook.com> |
License: |
MIT + file LICENSE |
NeedsCompilation: |
no |
Materials: |
README NEWS |
CRAN checks: |
phytoclass results |
Documentation:
Downloads:
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